scanpy.pl.MatrixPlot.savefig

MatrixPlot.savefig(filename, bbox_inches='tight', **kwargs)

Save the current figure

Parameters:

filename str

Figure filename. Figure format is taken from the file ending unless the parameter format is given.

bbox_inches str | None (default: 'tight')

By default is set to ‘tight’ to avoid cropping of the legends.

kwargs

Passed to matplotlib.pyplot.savefig()

See also

render(): Renders the plot but does not call matplotlib.pyplot.show() show(): Renders and shows the plot

Examples

>>> import scanpy as sc
>>> adata = sc.datasets.pbmc68k_reduced()
>>> markers = ["C1QA", "PSAP", "CD79A", "CD79B", "CST3", "LYZ"]
>>> sc.pl._baseplot_class.BasePlot(
...     adata, markers, groupby="bulk_labels"
... ).savefig("plot.pdf")